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20 pages, 720 KiB  
Article
Impact of Precision Feeding During Gestation on the Performance of Sows over Three Cycles
by Laetitia Cloutier, Lucie Galiot, Béatrice Sauvé, Carole Pierre, Frédéric Guay, Gabrielle Dumas, Patrick Gagnon and Marie-Pierre Létourneau Montminy
Animals 2024, 14(23), 3513; https://doi.org/10.3390/ani14233513 - 5 Dec 2024
Viewed by 490
Abstract
This study evaluated the impact of precision feeding and bump feeding strategies during gestation on the reproductive performance of sows monitored over three cycles. Four treatments were compared: two constant-concentration feeding strategies (0.53% standardized ileal digestible lysine content; SID Lys) with the feed [...] Read more.
This study evaluated the impact of precision feeding and bump feeding strategies during gestation on the reproductive performance of sows monitored over three cycles. Four treatments were compared: two constant-concentration feeding strategies (0.53% standardized ileal digestible lysine content; SID Lys) with the feed supply remaining constant (flat feeding; FF) or variable (bump feeding; BF) and two precision feeding strategies based on the InraPorc model considering performance by parity (precision feeding per parity; PFP) or the weight of each sow at breeding (precision feeding by individual; PFI). Sows were followed over three gestation and lactation cycles. In the first cycle (n = 502), the birth-to-weaning piglet mortality for PFP (8.7%) and PFI (10.3%) was lower than for BF (13.8%), with FF (11.3%) being intermediate (p = 0.001). No differences were observed in litter performance during the second cycle (n = 340). During the third cycle (n = 274), the stillborn rate was lower for PFP (6.2%) than for BF (9.1%) and FF (10.4%), with PFI (7.0%) being intermediate (p = 0.01). The BF strategy did not significantly improve sow or litter performance during lactation. Meanwhile, precision feeding could reduce nitrogen (10–13%) and total phosphorus intake (6–9%) with PFP and PFI strategies. Also, the results showed that it could even reduce piglet mortality during lactation. Full article
(This article belongs to the Special Issue Maternal Nutrition and Neonatal Development of Pigs)
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<p>Standardized ileal digestible lysine (SID Lys) content of feeds distributed according to dietary treatment (flat feeding, FF; bump feeding, BF; precision feeding per parity, PFP; and precision feeding per individual, PFI), gestation day, and parity.</p>
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<p>Plasma calcium as a function of treatment and parity. Treatment, <span class="html-italic">p</span> = 0.61; parity, <span class="html-italic">p</span> &lt; 0.001; treatment × time, <span class="html-italic">p</span> = 0.09 (flat feeding, FF; bump feeding, BF; precision feeding per parity, PFP; and precision feeding per individual, PFI).</p>
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<p>Backfat thickness gain in gestation and lactation according to dietary treatments during gestation over 3 cycles.</p>
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25 pages, 5565 KiB  
Article
Unsupervised Modelling of E-Customers’ Profiles: Multiple Correspondence Analysis with Hierarchical Clustering of Principal Components and Machine Learning Classifiers
by Vijoleta Vrhovac, Marko Orošnjak, Kristina Ristić, Nemanja Sremčev, Mitar Jocanović, Jelena Spajić and Nebojša Brkljač
Mathematics 2024, 12(23), 3794; https://doi.org/10.3390/math12233794 - 30 Nov 2024
Viewed by 597
Abstract
The rapid growth of e-commerce has transformed customer behaviors, demanding deeper insights into how demographic factors shape online user preferences. This study performed a threefold analysis to understand the impact of these changes. Firstly, this study investigated how demographic factors (e.g., age, gender, [...] Read more.
The rapid growth of e-commerce has transformed customer behaviors, demanding deeper insights into how demographic factors shape online user preferences. This study performed a threefold analysis to understand the impact of these changes. Firstly, this study investigated how demographic factors (e.g., age, gender, education) influence e-customer preferences in Serbia. From a sample of n = 906 respondents, conditional dependencies between demographics and user preferences were tested. From a hypothetical framework of 24 tested hypotheses, this study successfully rejected 8/24 (with p < 0.05), suggesting a high association between demographics with purchase frequency and reasons for quitting the purchase. However, although the reported test statistics suggested an association, understanding how interactions between categories shape e-customer profiles was still required. Therefore, the second part of this study considers an MCA-HCPC (Multiple Correspondence Analysis with Hierarchical Clustering on Principal Components) to identify user profiles. The analysis revealed three main clusters: (1) young, female, unemployed e-customers driven mainly by customer reviews; (2) retirees and older adults with infrequent purchases, hesitant to buy without experiencing the product in person; and (3) employed, highly educated, male, middle-aged adults who prioritize fast and accurate delivery over price. In the third stage, the clusters are used as labels for Machine Learning (ML) classification tasks. Particularly, Gradient Boosting Machine (GBM), Decision Tree (DT), k-Nearest Neighbors (kNN), Gaussian Naïve Bayes (GNB), Random Forest (RF), and Support Vector Machine (SVM) were used. The results suggested that GBM, RF, and SVM had high classification performance in identifying user profiles. Lastly, after performing Permutation Feature Importance (PFI), the findings suggested that age, work status, education, and income are the main determinants of shaping e-customer profiles and developing marketing strategies. Full article
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<p>The data workflow framework.</p>
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<p>The research hypothetical framework.</p>
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<p>Descriptive statistics of demographic data (<b>top row</b>) and user preferences (<b>bottom row</b>).</p>
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<p>MCA analysis including (<b>A</b>) <span class="html-italic">η</span><sup>2</sup> coefficient of categories concerning PCs; (<b>B</b>) MCA biplot of respondents (grey color) and class categories of categorical variables; (<b>C</b>) v-test score of class categories (<span class="html-italic">z</span> &gt; 1.96, <span class="html-italic">z</span> &lt; −1.96).</p>
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<p>Machine Learning Classification of (<b>A</b>) Receiver Operating Characteristic Curve representing Cluster 1 (red), Cluster 2 (green) and Cluster 3 (blue), and (<b>B</b>) Permutation Feature Importance estimated by Mean Dropout Loss.</p>
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<p>The purchase frequencies with corresponding demographics are (<b>A</b>) age, (<b>B</b>) education, (<b>C</b>) work status, and (<b>D</b>) income.</p>
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<p>The frequencies of reasons for quitting (RFQ) variable and corresponding demographics (<b>A</b>) residence, (<b>B</b>) income, (<b>C</b>) work status. The frequencies of MIPBREP (most important property before repeating the purchase) and demographic (<b>D</b>) income.</p>
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<p>Agglomerative Hierarchical Clustering of observations represented via (<b>A</b>) a dendrogram with observations (<span class="html-italic">x</span>-axis) and distance measured (<span class="html-italic">y</span>-axis); and (<b>B</b>) identified clusters based on the first two Principal Components.</p>
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15 pages, 2371 KiB  
Article
Evaluation of Two Particle Number (PN) Counters with Different Test Protocols for the Periodic Technical Inspection (PTI) of Gasoline Vehicles
by Anastasios Melas, Jacopo Franzetti, Ricardo Suarez-Bertoa and Barouch Giechaskiel
Sensors 2024, 24(20), 6509; https://doi.org/10.3390/s24206509 - 10 Oct 2024
Viewed by 718
Abstract
Thousands of particle number (PN) counters have been introduced to the European market, following the implementation of PN tests during the periodic technical inspection (PTI) of diesel vehicles equipped with particulate filters. Expanding the PN-PTI test to gasoline vehicles may face several challenges [...] Read more.
Thousands of particle number (PN) counters have been introduced to the European market, following the implementation of PN tests during the periodic technical inspection (PTI) of diesel vehicles equipped with particulate filters. Expanding the PN-PTI test to gasoline vehicles may face several challenges due to the different exhaust aerosol characteristics. In this study, two PN-PTI instruments, type-examined for diesel vehicles, measured fifteen petrol passenger cars with different test protocols: low and high idling, with or without additional load, and sharp accelerations. The instruments, one based on diffusion charging and the other on condensation particle counting, demonstrated good linearity compared to the reference instrumentation with R-squared values of 0.93 and 0.92, respectively. However, in a considerable number of tests, they registered higher particle concentrations due to the presence of high concentrations below their theoretical 23 nm cut-off size. The evaluation of the different test protocols showed that gasoline direct injection engine vehicles without particulate filters (GPFs) generally emitted an order of magnitude or higher PN compared to those with GPFs. However, high variations in concentration levels were observed for each vehicle. Port-fuel injection vehicles without GPFs mostly emitted PN concentrations near the lower detection limit of the PN-PTI instruments. Full article
(This article belongs to the Section Physical Sensors)
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<p>Schematic of the experimental setup. With red, we show heated lines. PTI = periodic technical inspection.</p>
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<p>Test procedure followed in this study including five different tests with a static vehicle. The plotted engine speed is indicative. At high idling (with or without load) and at sharp accelerations, the maximum engine speed was between 2000 and 3000 rpm. The brackets show the fraction of each test that was taken into account for the solid particle number average. For each sharp acceleration, the maximum concentration of each repetition was considered as the test emissions.</p>
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<p>Particle number concentrations and lambda values during testing at high, low, loaded low, loaded high idling, and sharp accelerations with a stationary vehicle for two gasoline direct injection (GDI) vehicles without gasoline particulate filters (GPFs): (<b>a</b>) V7; (<b>b</b>) V9.</p>
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<p>Particle number concentrations measured by the PTI instruments (<b>a</b>) PTI<sub>23</sub>-DC and (<b>b</b>) PTI<sub>23</sub>-CPC, against the reference LAB<sub>23</sub>. Solid markers represent vehicles with gasoline direct injection (GDI) engines and markers with no fill represent vehicles with port-fuel injection (PFI) engines. The solid black line represents a 1:1 relation. The dashed red lines represent 1.5 times LAB<sub>23</sub> and LAB<sub>23</sub> divided by 1.5. The dotted yellow line is a linear fit of the entire data (all plotted tests fitted) with the intercept set to zero.</p>
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<p>The deviation (%) of the PTI instruments (<b>a</b>) PTI<sub>23</sub>-DC and (<b>b</b>) PTI<sub>23</sub>-CPC, with respect to sub-23 nm fraction (%). Markers with solid fill represent vehicles powered with gasoline direct injection (GDI) engines and markers without fill represent vehicles with port-fuel injection (PFI) engines. In the figure, the inset displays a deviation that is much higher than the corresponding <span class="html-italic">y</span>-axis values.</p>
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<p>Summary of PN-PTI instruments and the reference LAB<sub>23</sub> and LAB<sub>10</sub> measurements using five different test protocols: (<b>a</b>) low idling; (<b>b</b>) loaded low idling; (<b>c</b>) high idling; (<b>d</b>) loaded high idling; and (<b>e</b>) sharp accelerations. The horizontal dotted red line indicates the diesel vehicles’ PN-PTI limit of 250,000 #/cm<sup>3</sup> proposed in the European Commission guidelines. In panel 6e, the average of three sharp accelerations is plotted and the bars show the highest and the lowest measured SPN values. GDI = Gasoline Direct Injection. PFI = Port-Fuel Injection. GPF = Gasoline Particulate Filter.</p>
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17 pages, 679 KiB  
Article
Imidazoles and Quaternary Ammonium Compounds as Effective Therapies against (Multidrug-Resistant) Bacterial Wound Infections
by Lauren Van de Vliet, Thijs Vackier, Karin Thevissen, David Decoster and Hans P. Steenackers
Antibiotics 2024, 13(10), 949; https://doi.org/10.3390/antibiotics13100949 - 10 Oct 2024
Viewed by 1070
Abstract
Background/Objectives: The rise and spread of antimicrobial resistance complicates the treatment of bacterial wound pathogens, further increasing the need for newer, effective therapies. Azoles such as miconazole have shown promise as antibacterial compounds; however, they are currently only used as antifungals. Previous research [...] Read more.
Background/Objectives: The rise and spread of antimicrobial resistance complicates the treatment of bacterial wound pathogens, further increasing the need for newer, effective therapies. Azoles such as miconazole have shown promise as antibacterial compounds; however, they are currently only used as antifungals. Previous research has shown that combining azoles with quaternary ammonium compounds yields synergistic activity against fungal pathogens, but the effect on bacterial pathogens has not been studied yet. Methods: In this study, the focus was on finding active synergistic combinations of imidazoles and quaternary ammonium compounds against (multidrug-resistant) bacterial pathogens through checkerboard assays. Experimental evolution in liquid culture was used to evaluate the possible emergence of resistance against the most active synergistic combination. Results: Several promising synergistic combinations were identified against an array of Gram-positive pathogens: miconazole/domiphen bromide, ketoconazole/domiphen bromide, clotrimazole/domiphen bromide, fluconazole/domiphen bromide and miconazole/benzalkonium chloride. Especially, miconazole with domiphen bromide exhibits potential, as it has activity at a low concentration against a broad range of pathogens and shows an absence of strong resistance development over 11 cycles of evolution. Conclusions: This study provides valuable insight into the possible combinations of imidazoles and quaternary ammonium compounds that could be repurposed for (topical) wound treatment. Miconazole with domiphen bromide shows the highest application potential as a possible future wound therapy. However, further research is needed into the mode of action of these compounds and their efficacy and toxicity in vivo. Full article
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<p>Evolution of the MIC (μg/mL) of (<b>a</b>) miconazole in monotherapy (green) and combination therapy (black), (<b>b</b>) domiphen bromide in monotherapy (blue) and combination therapy (black) and (<b>c</b>) fusidic acid over the course of 11 cycles (each 18 h) of the evolution experiment. Indicated in (<b>c</b>) in the red dotted line is the clinical breakpoint for fusidic acid (1 µg/mL), as determined by EUCAST for <span class="html-italic">Staphylococci</span> [<a href="#B36-antibiotics-13-00949" class="html-bibr">36</a>].</p>
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<p>Ratio of the zone of inhibition (ZOI) of the evolved populations to the ZOI of their respective ancestral population obtained in the spot assay. The control-evolved (CE), miconazole-treated (MICO EV), domiphen bromide-treated (DOMI EV) and combination therapy (DUO EV) were obtained through experimental evolution. The populations were treated with (<b>a</b>) 208 µg/mL (8× MIC) miconazole, (<b>b</b>) 58 µg/mL (32 MIC) domiphen bromide and (<b>c</b>) 26 µg/mL (8× MIC) miconazole with 5.2 µg/mL (8× MIC) domiphen bromide. Both the zone of complete clearance (light gray) and the outer edges of the ZOI with partial growth (dark gray) were quantified using the ImageJ 1.54f (Fiji) analysis software.</p>
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27 pages, 3013 KiB  
Article
Impact of Enterprise Supply Chain Digitalization on Cost of Debt: A Four-Flows Perspective Analysis Using Explainable Machine Learning Methodology
by Hongqin Tang, Jianping Zhu, Nan Li and Weipeng Wu
Sustainability 2024, 16(19), 8702; https://doi.org/10.3390/su16198702 - 9 Oct 2024
Viewed by 1557
Abstract
Rising costs, complex supply chain management, and stringent regulations have created significant financial burdens on business sustainability, calling for new and rapid strategies to help enterprises transform. Supply chain digitalization (SCD) has emerged as a promising approach in the context of digitalization and [...] Read more.
Rising costs, complex supply chain management, and stringent regulations have created significant financial burdens on business sustainability, calling for new and rapid strategies to help enterprises transform. Supply chain digitalization (SCD) has emerged as a promising approach in the context of digitalization and globalization, with the potential to reduce an enterprise’s debt costs. Developing a strategic framework for SCD that effectively reduces the cost of debt (CoD) has become a key academic challenge, critical for ensuring business sustainability. To this end, under the perspective of four flows, SCD is deconstructed into four distinct features: logistics flow digitalization (LFD), product flow digitalization (PFD), information flow digitalization (IFD), and capital flow digitalization (CFD). To precisely measure the four SCD features and the dependent variable, COD, publicly available data from Chinese listed manufacturing enterprises such as annual report texts and financial statement data are collected, and various data mining technologies are also used to conduct data measurement and data processing. To comprehensively investigate the impact pattern of SCD on CoD, we employed the explainable machine learning methodology for data analysis. This methodology involved in-depth data discussions, cross-validation utilizing a series of machine learning models, and the utilization of Shapley additive explanations (SHAP) to explain the results generated by the models. To conduct sensitivity analysis, permutation feature importance (PFI) and partial dependence plots (PDPs) were also incorporated as supplementary explanatory methods, providing additional insights into the model’s explainability. Through the aforementioned research processes, the following findings are obtained: SCD can play a role in reducing CoD, but the effects of different SCD features are not exactly the same. Among the four SCD features, LFD, PFD, and IFD have the potential to significantly reduce CoD, with PFD having the most substantial impact, followed by LFD and IFD. In contrast, CFD has a relatively weak impact, and its role is challenging to discern. These findings provide significant guidance for enterprises in furthering their digitalization and supply chain development, helping them optimize SCD strategies more accurately to reduce CoD. Full article
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<p>Research framework.</p>
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<p>Contributions of SCD features to CoD under XGBoost.</p>
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<p>Contributions of SCD features to CoD under LightGBM.</p>
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<p>Contributions of SCD features to CoD under CatBoost.</p>
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<p>Contributions of SCD features to CoD using PFI and PDPs under XGBoost.</p>
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<p>Contributions of SCD features to CoD using PFI and PDPs under LightGBM.</p>
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<p>Contributions of SCD features to CoD using PFI and PDPs under CatBoost.</p>
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11 pages, 1433 KiB  
Article
Investigating the Variation between Lignin Content and the Fracture Characteristics in Capsicum annuum Mutant Stems
by Bánk Pápai, Zsófia Kovács, Kitti Andrea Tóth-Lencsés, Janka Bedő, Khin Nyein Chan, Mária Kovács-Weber, Tibor István Pap, Gábor Csilléry, Antal Szőke and Anikó Veres
Agriculture 2024, 14(10), 1771; https://doi.org/10.3390/agriculture14101771 - 8 Oct 2024
Viewed by 919
Abstract
The cultivation of horticultural plants in controlled greenhouse environments is a pivotal practice in modern agriculture, offering the potential to enhance crop productivity and mitigate climate change effects. This study investigates the biomechanical properties and lignin content of various Capsicum annuum mutant lines—‘fragile-plant’ [...] Read more.
The cultivation of horticultural plants in controlled greenhouse environments is a pivotal practice in modern agriculture, offering the potential to enhance crop productivity and mitigate climate change effects. This study investigates the biomechanical properties and lignin content of various Capsicum annuum mutant lines—‘fragile-plant’ (frx), ‘tortuous internodi’ (tti), and ‘puffy-structured stem’ (pfi)—in comparison to a commercially established variety, ‘Garai Fehér’. We employed the acetyl bromide method to quantify lignin content and conducted three-point bending tests to assess rigidity in three distinct regions of the stem. Gene expression analysis of key lignin biosynthetic pathway genes (PAL, C4H, 4CL, CCoAOMT, CAD) was performed using qRT-PCR. The results revealed significant differences in lignin content and breaking force among the genotypes and stem regions. The tti mutants exhibited similar lignin content to the control but lower breaking strength, likely due to elongated internodes. The frx mutants showed uniformly reduced lignin content, correlating with their fragile stems. The pfi mutants displayed abnormally high lignin content in the top region yet demonstrated the lowest stem rigidity in every region. Overexpression of CAD and CCoAOMT was detected in the mutants in specific regions of the stem, suggesting alterations in lignin biosynthesis; however, we could not confirm the correlation between them. Our findings indicate that while lignin content generally correlates with stem rigidity, this trait is complex and influenced by more factors. Full article
(This article belongs to the Special Issue Effects of Crop Management on Yields)
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<p>(<b>A</b>) <span class="html-italic">frx</span>—fragile-plant (on the left) compared to a control (right), (<b>B</b>) <span class="html-italic">tti</span>—tortuous internodi plants grown in greenhouse, (<b>C</b>) <span class="html-italic">pfi</span> exhibiting the puffy-structured stem.</p>
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<p>Sampling regions of the stem for lignin content and mechanical property evaluation.</p>
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<p>Regression plot summarizing the correlation between lignin content and breaking value among the genotypes.</p>
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<p>The heat map illustrates the differential relative gene expression levels across various regions of different mutant lines compared to the control genotype ‘Garai Fehér’.</p>
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16 pages, 4355 KiB  
Article
Novel Insight into the Prevention and Therapeutic Treatment of Paulownia Witches’ Broom: A Study on the Effect of Salicylic Acid on Disease Control and the Changes in the Paulownia Transcriptome and Proteome
by Yujie Fan, Peipei Zhu, Hui Zhao, Haibo Yang, Wenhu Wang and Guoqiang Fan
Int. J. Mol. Sci. 2024, 25(19), 10553; https://doi.org/10.3390/ijms251910553 - 30 Sep 2024
Viewed by 723
Abstract
Paulownia species not only have significant economic benefits but also show great potential in ecological conservation. However, they are highly susceptible to phytoplasma infections, causing Paulownia witches’ broom (PaWB), which severely restricts the development of the Paulownia industry. Salicylic acid (SA) plays a [...] Read more.
Paulownia species not only have significant economic benefits but also show great potential in ecological conservation. However, they are highly susceptible to phytoplasma infections, causing Paulownia witches’ broom (PaWB), which severely restricts the development of the Paulownia industry. Salicylic acid (SA) plays a crucial role in plant disease resistance. However, there have been no reports on the effect of SA on PaWB. Due to the properties of SA, it may have potential in controlling PaWB. Based on the above speculation, the prevention and therapeutic effect of SA on PaWB and its effect on the PaWB-infected Paulownia transcriptome and proteome were studied in this work. The results indicated that 0.1 mmol/L was the optimal SA concentration for inhibiting the germination of Paulownia axillary buds. In terms of resistance physiological indicators, SA treatment significantly affected both Paulownia tomentosa infected (PTI) seedlings and Paulownia fortunei infected (PFI) seedlings, where the activities of peroxidase (POD) and superoxide dismutase (SOD) were enhanced. Malondialdehyde (MDA), O2, and H2O2, however, were significantly reduced. Specifically, after SA treatment, SOD activity increased by 28% in PFI and 25% in PTI, and POD activity significantly increased by 61% in PFI and 58% in PTI. Moreover, the MDA content decreased by 30% in PFI and 23% in PTI, the H2O2 content decreased by 26% in PFI and 19% in PTI, and the O2 content decreased by 21% in PFI and 19% in PTI. Transcriptomic analysis showed that there were significant upregulations of MYB, NAC, and bHLH and other transcription factors after SA treatment. Moreover, genes involved in PaWB-related defense responses such as RAX2 also showed significant differences. Furthermore, proteomic analysis indicated that after SA treatment, proteins involved in signal transduction, protein synthesis modification, and disease defense were differentially expressed. This work provides a research foundation for the prevention and treatment of PaWB and offers references for exploring anti-PaWB methods. Full article
(This article belongs to the Section Bioactives and Nutraceuticals)
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<p>(<b>A</b>) H<sub>2</sub>O<sub>2</sub> content under DAB staining. (<b>a</b>) PF. (<b>b</b>) PFI. (<b>c</b>) PFI + 0.1 mM SA treatment. (<b>d</b>) PT. (<b>e</b>) PTI. (<b>f</b>) PTI + 0.1 mM SA treatment. (<b>B</b>) O<sub>2</sub><sup>−</sup> content under NBT staining. (<b>a</b>) PF. (<b>b</b>) PFI. (<b>c</b>) PFI + 0.1 mM SA treatment. (<b>d</b>) PT. (<b>e</b>) PTI. (<b>f</b>) PTI + 0.1 mM SA treatment.</p>
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<p>Quantitative determination of (<b>A</b>) H<sub>2</sub>O<sub>2</sub> content and (<b>B</b>) O<sub>2</sub><sup>−</sup> content. The different letters (a, b, c) on the bars in the figure indicate significant differences at the 5% level (<span class="html-italic">p</span> ˂ 0.05).</p>
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<p>Effect of SA treatment on callose precipitation. (<b>a</b>) PF. (<b>b</b>) PFI. (<b>c</b>) PFI + 0.1 mM SA treatment. (<b>d</b>) PT. (<b>e</b>) PTI. (<b>f</b>) PTI + 0.1 mM SA treatment. Bar = 200 μm. The fluorescence indicated by the white arrow is the callose precipitation.</p>
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<p>Effects of SA treatment on the content of (<b>A</b>) malondialdehyde (MDA), (<b>B</b>) superoxide dismutase (SOD), and (<b>C</b>) peroxidase (POD). The different letters (a, b, c, d) on the bars in the figure indicate significant differences at the 5% level (<span class="html-italic">p</span> ˂ 0.05).</p>
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<p>Effect of SA treatment on phytoplasma content. M: DL5000 Marker; 1: PF; 2: PFI; 3: PFI+0.1 mmol/L SA treatment; 4: PT; 5: PTI; 6: PTI+0.1 mmol/L SA.</p>
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<p>Sample correlation heatmap. PTI: <span class="html-italic">Paulownia tomentosa</span> infected; PT: <span class="html-italic">Paulownia tomentosa</span>; PFI: <span class="html-italic">Paulownia fortunei</span> infected; PF: <span class="html-italic">Paulownia fortunei</span>.</p>
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<p>Statistical plot of the number of DEGs (differentially expressed genes). PTI: <span class="html-italic">Paulownia tomentosa</span> infected; PT: <span class="html-italic">Paulownia tomentosa</span>; PFI: <span class="html-italic">Paulownia fortunei</span> infected; PF: <span class="html-italic">Paulownia fortunei</span>.</p>
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<p>Clustering analysis of DEGs. (<b>A</b>) PF vs. PFI. (<b>B</b>) PFI vs. PFI+SA treatment. (<b>C</b>) PF vs. PFI+SA treatment.</p>
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<p>Clustering analysis of DEGs. (<b>A</b>) PT vs. PTI. (<b>B</b>) PTI vs. PTI + SA treatment. (<b>C</b>) PT vs. PTI + SA treatment.</p>
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<p>Validation by qRT-PCR. (<b>A</b>) Validation of the transcriptome sequencing of PF, PFI, and PFI + SA. (<b>B</b>) Validation of the transcriptome sequencing of PT, PTI, and PTI + SA. *, ** and *** stand for <span class="html-italic">p</span> &lt; 0.05, <span class="html-italic">p</span> &lt; 0.01 and <span class="html-italic">p</span> &lt; 0.001, respectively.</p>
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<p>Cluster analysis of differentially expressed proteins (DEPs). PFI: <span class="html-italic">Paulownia fortunei</span> infected; PF: <span class="html-italic">Paulownia fortunei</span>.</p>
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<p>Cluster analysis of DEPs. PTI: <span class="html-italic">Paulownia tomentosa</span> infected; PT: <span class="html-italic">Paulownia tomentosa</span>.</p>
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18 pages, 1814 KiB  
Article
Analysis of ATP7A Expression and Ceruloplasmin Levels as Biomarkers in Patients Undergoing Neoadjuvant Chemotherapy for Advanced High-Grade Serous Ovarian Carcinoma
by David Lukanović, Sara Polajžer, Miha Matjašič, Borut Kobal and Katarina Černe
Int. J. Mol. Sci. 2024, 25(18), 10195; https://doi.org/10.3390/ijms251810195 - 23 Sep 2024
Viewed by 1106
Abstract
Ovarian cancer (OC), particularly high-grade serous carcinoma (HGSC), is a leading cause of gynecological cancer mortality due to late diagnosis and chemoresistance. While studies on OC cell lines have shown that overexpression of the ATP7A membrane transporter correlates with resistance to platinum-based drugs [...] Read more.
Ovarian cancer (OC), particularly high-grade serous carcinoma (HGSC), is a leading cause of gynecological cancer mortality due to late diagnosis and chemoresistance. While studies on OC cell lines have shown that overexpression of the ATP7A membrane transporter correlates with resistance to platinum-based drugs (PtBMs) and cross-resistance to copper (Cu), clinical evidence is lacking. The functionality of ceruloplasmin (CP), the main Cu-transporting protein in the blood, is dependent on, among other things, ATP7A activity. This study investigated ATP7A expression and CP levels as potential biomarkers for predicting responses to PtBMs. We included 28 HGSC patients who underwent neoadjuvant chemotherapy (NACT). ATP7A expression in ovarian and peritoneal tissues before NACT and in peritoneal and omental tissues after NACT was analyzed via qPCR, and CP levels in ascites and plasma were measured via ELISA before and after NACT. In total, 54% of patients exhibited ATP7A expression in pretreatment tissue (ovary and/or peritoneum), while 43% of patients exhibited ATP7A expression in tissue after treatment (peritoneum and/or omentum). A significant association was found between higher ATP7A expression in the peritoneum before NACT and an unfavorable CA-125 elimination rate constant k (KELIM) score. Patients with omental ATP7A expression had significantly higher plasma mean CP levels before NACT. Plasma CP levels decreased significantly after NACT, and higher CP levels after NACT were associated with a shorter platinum-free interval (PFI). These findings suggest that the ATP7A transporter and CP have the potential to serve as predictive markers of chemoresistance, but further research is needed to validate their clinical utility. Full article
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<p>Expression of ATP7A in different tissues at different time points. PS—primary surgery; IDS—interval debulking surgery.</p>
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<p>Violin plot of PCR-based ATP7A expression, normalized to the ACTB gene, across different tissues. ATP7A expression is categorized as positive (≥1, dashed line) and negative (&lt;1) normalized to the reference gene. PS—primary surgery; IDS—interval debulking surgery.</p>
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<p>CP concentration levels in paired ascites and plasma samples before chemotherapy and in plasma samples after chemotherapy. CP levels in ascites are consistent and generally lower, centered around 20–25 mg/dL. In plasma at PS, CP levels are more variable, with a mean of 38.68 mg/dL. After chemotherapy (at IDS), the distribution shifts downwards to a mean of 28.21 mg/dL, but variability among patients remains. PS—primary surgery; IDS—interval debulking surgery.</p>
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<p>Correlation between CP in plasma at PS and ascites at PS. The shaded area in the plot represents the 95% confidence interval around the LOESS smoothing curve. PS—Primary surgery.</p>
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<p>Chronological description of sample collection during the trial.</p>
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<p>Patient selection flowchart.</p>
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21 pages, 3494 KiB  
Article
Glioma Stem Cells: GPRC5A as a Novel Predictive Biomarker and Therapeutic Target Associated with Mesenchymal and Stemness Features
by Sara Sadat Aghamiri and Rada Amin
Appl. Sci. 2024, 14(18), 8482; https://doi.org/10.3390/app14188482 - 20 Sep 2024
Viewed by 854
Abstract
Glioblastoma multiforme (GBM) represents the deadliest form of brain cancer, characterized by complex interactions within its microenvironment. Despite the understanding of GBM biology, GBM remains highly resistant to any therapy. Therefore, defining innovative biomarkers in GBM can provide insights into tumor biology and [...] Read more.
Glioblastoma multiforme (GBM) represents the deadliest form of brain cancer, characterized by complex interactions within its microenvironment. Despite the understanding of GBM biology, GBM remains highly resistant to any therapy. Therefore, defining innovative biomarkers in GBM can provide insights into tumor biology and potential therapeutic targets. In this study, we explored the potential of GPRC5A to serve as a pertinent biomarker for GBM. We utilized the GBM-TCGA dataset and presented the reproducible bioinformatics analysis for our results. We identified that GPRC5A expression was significantly upregulated in GBM compared to normal tissues, with higher levels correlating with poor overall survival (OS) and progression-free interval (PFI). Moreover, it was associated with key genetic mutations, particularly NF1 and PTEN mutations, and strongly correlated with the mesenchymal stem-like phenotype. GPRC5A was also predominantly associated with aggressive GBM features, including hypoxia, high extracellular matrix (ECM) environments, and extensive stromal and immune infiltrations. Its strong correlation with mesenchymal markers and hypoxic regions underscores its potential as a biomarker and therapeutic target in GBM. These findings provide valuable insights into the role of GPRC5A in GBM pathology and its potential impact as a target for GBM stratifications and treatment strategies. Full article
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<p>Clinical relevance of GPRC5A in GBM. (<b>A</b>) Differential GPRC5A gene expression in normal (N, n = 207, gray) versus LGG (T, n = 518, red) and GBM (T, n = 163, red). Statistical test was performed using one-way ANOVA, * <span class="html-italic">p</span> &lt; 0.05. (<b>B</b>) Kaplan–Meier curve of overall and progression-free survival analysis of high (n = 85, red) and low expression (n = 81, blue) of GPRC5A in GBM cohort. The difference between the two curves was determined by the two-sided log-rank test. (<b>C</b>) GPCR5A distribution between wild-type (WT, green) and the main genetic mutations (red) in GBM. Statistical testing was performed using the Wilcoxon test, and the p-value is shown on the graph. (<b>D</b>) Differential expression of GPCR5A in different GBM subtypes: classical (n = 42), neural (n = 28), proneural (n = 39), and mesenchymal (n = 55). Statistical testing was performed using unpaired Student’s <span class="html-italic">t</span>-tests. **** <span class="html-italic">p</span> &lt; 0.001, NS: non-significant. (<b>E</b>) Kaplan–Meier curve of overall and progression-free survival analysis of high (n = 29, red) and low expression (n = 26, blue) of GPRC5A in mesenchymal subtype cohort. The difference between the two curves was determined by the two-sided log-rank test.</p>
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<p>Mutation and clinical landscape of GPRC5A. (<b>A</b>) Frequency of GPRC5A genetic alterations in the TCGA pan-cancer dataset. (<b>B</b>) Mutation site of GPRC5A with missense at the intron and the nonsense mutation localized at the exon of 7 transmembrane sweet-taste receptor of 3 GCPR (38–268) (7tm_3). Differential expression of GPRC5A across clinical and molecular variables: (<b>C</b>) age (20–40, n = 11; 40–60, n = 63; 60–80, n = 88), (<b>D</b>) gender (female, n = 58; male, n = 104), (<b>E</b>) race (Asian, n = 5; African-American, n = 11; Hispanic, n = 2; Caucasian, n = 146), (<b>F</b>) G-CIMP status (non G-CIMP, n = 147; G-CIMP, n = 15), and (<b>G</b>) MGMT methylated (n = 57) versus unmethylated (n = 67) status. Data are expressed as the mean ± SD. Statistical comparisons were performed using unpaired Student’s <span class="html-italic">t</span>-test. ** <span class="html-italic">p</span> &lt; 0.01, **** <span class="html-italic">p</span> &lt; 0.0001, NS: not significant.</p>
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<p>GPCR5A is strongly associated with the mesenchymal stem-like phenotype. (<b>A</b>) Hallmark gene sets from GSEA analysis for high GPRC5A expression versus low expression. The top 10 significant signatures are represented as the normalized enrichment score (NES), with the p-values shown in the code color. (<b>B</b>) Enrichment plots of epithelial–mesenchymal transition pathway from GSEA analysis. (<b>C</b>) Differential gene expression of the mesenchymal marker CD44 in low and high GPRC5A group (n = 86) (left panel) using unpaired Student’s <span class="html-italic">t</span>-tests (**** <span class="html-italic">p</span> &lt; 0.001) and Spearman correlation test between CD44 and GPRC5A expression across GBM cohort (right panel). (<b>D</b>) Differential gene expression of CD133 in low and high GPRC5A groups (n = 86) (left panel) using unpaired Student’s <span class="html-italic">t</span>-tests (NS = non-significant) and Spearman correlation between CD133 and GPRC5A expression across GBM cohort (right panel). (<b>E</b>) Top 10 canonical gene sets from GSEA for high GPRC5A expression versus low expression, with the p-values shown in the code color. (<b>F</b>) Differential correlation between GPRC5A expression with multiple GBM stem cell markers (n = 172) by plotting log2 (norm count + 1) for each marker. αvβ3 (integrin alpha 5 beta 3); VEGFA (vascular endothelial growth factor A); NRF2 (nuclear factor erythroid 2-related factor 2); uPAR (urokinase plasminogen activator surface receptor), PDGFRB (platelet-derived growth factor receptor beta), CXCR4 (CXC chemokine receptor 4). All statistical correlations between GPRC5A and stem cell markers were analyzed using the Spearman correlation test.</p>
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<p>The association between GPRC5A and the immune microenvironment in GBM. (<b>A</b>) Differential correlation of immune score and estimate scores correlate with GPRC5A log2 (norm count + 1). All statistical correlations were analyzed using the Spearman test (n = 166). (<b>B</b>) Top 10 canonical immune cell gene sets from GSEA for high GPRC5A expression versus low expression with a p-value shown with code color. (<b>C</b>) Spearman correlation bubble plot of various immune cells associated with GPRC5A expression. The significance shows the correlation coefficient with a −log10 <span class="html-italic">p</span>-value. (<b>D</b>) Heatmap displaying the distribution of immune cells across GBM subtypes compared to GPRC5A. Statistical testing was performed with the Spearman correlation test, and the significant <span class="html-italic">p</span> value is displayed on the heatmap. **** <span class="html-italic">p</span> &lt; 0.0001, *** <span class="html-italic">p</span> &lt; 0.001, ** <span class="html-italic">p</span> &lt; 0.01, and * <span class="html-italic">p</span> &lt; 0.05.</p>
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<p>The spatial association between GPRC5A with the stroma microenvironment in GBM. (<b>A</b>) Spearman correlation test between stroma score and GPRC5A expression in GBM cohort (n = 166). (<b>B</b>) GPRC5A expression assessed in tumor cell tissue (n = 9) compared to pseudopalisading cells (n = 9). Statistical analyses were conducted using an unpaired Student’s <span class="html-italic">t</span>-test with a significance threshold of **** <span class="html-italic">p</span> &lt; 0.001. (<b>C</b>) GPRC5A expression was analyzed in various histologic regions of GBM tissue from the Ivy GBM Atlas, including infiltrating tumor (IT, n = 24), leading edge (LE, n = 19), microvascular proliferation (MVP, n = 4), hyperplastic blood vessels (HBV, n = 6), pseudopalisading cells around necrosis (PAN, n = 12), and the perinecrotic zone (PZ, n = 8). The data are presented as the means ± SD, and statistical comparisons were made using a one-way ANOVA test to determine the <span class="html-italic">p</span>-value (**** <span class="html-italic">p</span> &lt; 0.0001). (<b>D</b>) GPRC5A expression was assessed in normal tissue compared to the primary and recurrent sites of GBM. The data are presented as the means ± SD, and statistical comparisons were made using an unpaired Student’s <span class="html-italic">t</span>-test. * <span class="html-italic">p</span> = 0.03, NS: not significant (<b>E</b>) Top 10 canonical gene sets from GSEA for high GPRC5A expression versus low expression. (<b>F</b>) Spearman correlation bubble plot of various stroma cells associated with GPRC5A expression. CAFs, cancer-associated fibroblasts; P-Fbs, perivascular fibroblasts, M-Fbs, meningeal fibroblasts; SMCs, smooth muscle cells; ECM, extracellular matrix high and low. The significance shows the correlation coefficient with a −log10 <span class="html-italic">p</span>-value.</p>
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<p>Kaplan–Meier curve of overall survival and progression-free interval of classical (<b>A</b>), proneural (<b>B</b>), and neural (<b>C</b>) subtypes comparing high (red) and low expressions (blue) of GPRC5A. The difference between the two curves was determined by the two-sided log-rank test.</p>
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11 pages, 4426 KiB  
Article
NaClO3 Crystal Growth and Dissolution by Temperature Cycling in a Sessile Droplet
by Alexis Leborgne, Woo-Sik Kim, Bum Jun Park, Morgane Sanselme and Gérard Coquerel
Minerals 2024, 14(9), 898; https://doi.org/10.3390/min14090898 - 30 Aug 2024
Viewed by 1072
Abstract
Sodium chlorate is the most popular compound used to study spontaneous symmetry breaking by means of crystallization. Therefore, it is important to know the behavior of the solid particles. NaClO3 crystal growth and dissolution are investigated in an aqueous sessile droplet subjected [...] Read more.
Sodium chlorate is the most popular compound used to study spontaneous symmetry breaking by means of crystallization. Therefore, it is important to know the behavior of the solid particles. NaClO3 crystal growth and dissolution are investigated in an aqueous sessile droplet subjected to numerous temperature cycles. On cooling, in addition to the classical formation of repeated elongated fluid inclusions, there is a reproducible appearance of prismatic fluid inclusions (PFIs) at the corners of single crystals. The underlying mechanism involves the complete termination of the (110) face growth and the propagation of the {100} faces, which can close the PFIs. This study reports that on heating, transient donut-like single crystals formed, which could lead to their segmentation, even without stirring the suspension. The systematic addition of other sodium salts with chlorine atoms at different oxidation states did not change these observations. Full article
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<p>PFI formation at a cooling rate of 5 K/min from 60 °C to 20 °C (<b>a</b>–<b>f</b>). The temperature of each frame is indicated in the top right corner, and the time in the bottom right corner; (<b>g</b>) Specific temperature profile for this inclusion. Black triangles represent the temperature and the time from a to f for each picture.</p>
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<p>Schematic representation of a prismatic fluid inclusion (PFI) formation. The blue arrows show the propagation of {100} faces, which form the PFI after the complete termination of the growth of the (110) face. As a result, the blue prism contains the mother liquor; cf. <a href="#app1-minerals-14-00898" class="html-app">Video S1</a>.</p>
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<p>Detailed top view of a prismatic fluid inclusion (PFI).</p>
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<p>(<b>Top</b>): Starting temperatures (⬪) at which the successive (110) faces stop growing and thus initiate a PFI. (<b>Bottom</b>): Closure temperatures (▲) of the PFIs. Heating and cooling performed at +10 K/min and −10 K/min, respectively. In the same graphics, the surfaces of the PFIs are reported with red dots (i.e., the volume, if we assume no variation in the thickness), showing almost no correlation between the temperature at which GR(110) = 0 and the time elapsed between the termination of the growth of the (110) face and the PFI closure.</p>
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<p>Elongated and prismatic fluid inclusion (PFI) formation during crystallization at 2 K/min between 60 °C and 46 °C. The temperature of each frame is shown in the top right corner, and the time in the bottom right corner. A zoom of these fluid inclusions at 46 °C is encircled in red. Extracted from <a href="#app1-minerals-14-00898" class="html-app">Video S3</a>.</p>
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<p><b>The</b> {100} and (110) growth rates vs. time (GR{100}: ◼ and • and GR(110): ▲). The ▲ face has its growth interrupted once, and then it resumes. However, growth stops again after the formation of an elongated fluid inclusion. The faces ◼ and • have nearly constant and low growth rates. The dashed lines are visual guides. The inset presents the schematic formation of an elongated FI and PFI.</p>
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<p>Christmas tree inclusion formation during crystallization at −2 K/min between 48 °C and 26 °C. The zoom at 26°C highlights the encircled Christmas tree. Extracted from <a href="#app1-minerals-14-00898" class="html-app">Video S4</a>.</p>
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<p>Mechanism of Christmas tree inclusion formation. The (110) face shows a growth interruption (in blue). The blue arrows represent the propagation of the {100} faces, which progressively close the PFIs. The dark blue part represents the projection of the PFIs in the shape of a Christmas tree that is filled by the mother liquor.</p>
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<p>Normal growth rate (GR) of the {100} faces are symbolized as: ◼, • and GR(110) face symbolized as: ▲. The dashed lines are visual guides. The growth interruption of the face (110) is represented by the up-and-down motion of the dashed line. Black arrows represent the faces’ GR. The blue triangle represents the mother liquor.</p>
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<p>Propagation rate (PR) of equivalent faces (100) (○) and (010) (□) that close the FI in the shape of a Christmas tree; (001) and (00-1) are not visible. The dashed lines are visual guides. Blue arrows represent the PRs of the faces. The blue triangle contains the mother liquor.</p>
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<p>(<b>Top</b>): Formation of a donut and fragmentation of a NaClO<sub>3</sub> single crystal undergoing repetitive 20–60–20 temperature cycles in a sessile droplet. Photos extracted from <a href="#app1-minerals-14-00898" class="html-app">Video S5</a>, given in the SI. (<b>Bottom</b>): Schematic representation of the segmentation of the single crystal after the formation of a donut. The formation of a PFI helps in the subsequent fragmentation of the single crystal. NB: there is no stirring during these experiments.</p>
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8 pages, 1072 KiB  
Case Report
Congenital Suipoxvirus Infection in Newborn Piglets in an Austrian Piglet-Producing Farm
by Lukas Schwarz, René Brunthaler, Angelika Auer, René Renzhammer, Ursula Friedmann and Andrea Buzanich-Ladinig
Microorganisms 2024, 12(9), 1757; https://doi.org/10.3390/microorganisms12091757 - 24 Aug 2024
Viewed by 1295
Abstract
In February 2020, a fourth parity sow gave birth to a litter of piglets with four piglets presenting pox-like skin lesions. Lesions were distributed over the whole skin surface and ulcerative lesions were also observed on the mucosa of the oral cavity. The [...] Read more.
In February 2020, a fourth parity sow gave birth to a litter of piglets with four piglets presenting pox-like skin lesions. Lesions were distributed over the whole skin surface and ulcerative lesions were also observed on the mucosa of the oral cavity. The skin lesions were described as looking like pox lesions. Virological and histopathological investigations confirmed congenital suipoxvirus infection. Since there is no effective treatment available, the farmer was recommended to improve hygiene. No further cases occurred after this single event. In the past, suipoxvirus infections were mainly related to improper hygiene conditions and to pig lice as vectors. Today, conventional pigs are usually kept under good hygienic conditions and pig lice are not reported anymore to occur in Austrian conventional pig farming systems. Therefore, we speculate, that other living vectors, such as the stable fly, may play a role in the transmission of suipoxvirus between and within farms and in the occurrence of congenital suipoxvirus infections in neonatal piglets. Full article
(This article belongs to the Special Issue Animal Virology, Molecular Diagnostics and Vaccine Development)
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<p>Severely affected neonatal piglet presenting with characteristic pox-like skin lesions. This piglet did not suckle, while the littermates did (<b>A</b>). Two piglets with pox-like lesions on all the skin of the body, showing additionally ulcerative lesions in the mucosa of the oral cavity. The red arrows indicate affected parts of the oral mucosa (<b>B</b>,<b>C</b>).</p>
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<p>(<b>A</b>) High-grade necrosis of keratinocytes with superficial crusts, intralesional bacteria and plant material. The underlying dermis is infiltrated by numerous neutrophilic granulocytes. Hydropic degeneration of the epidermis can be seen in the marginal area of this lesion; hematoxylin and eosin; bar = 400 µm. (<b>B</b>) Zone of marked hydropic degeneration of keratinocytes with concomitant epidermal hyperplasia (asterisk); hematoxylin and eosin; bar = 160 µm. (<b>C</b>) Hydropic degeneration of the stratum spinosum keratinocytes with eosinophilic intracytoplasmic inclusion bodies (arrow); hematoxylin and eosin; bar = 40 µm.</p>
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16 pages, 1558 KiB  
Article
Associations between Ultrasonographically Diagnosed Lung Lesions, Clinical Parameters and Treatment Frequency in Veal Calves in an Austrian Fattening Farm
by Julia Hoffelner, Walter Peinhopf-Petz and Thomas Wittek
Animals 2024, 14(16), 2311; https://doi.org/10.3390/ani14162311 - 8 Aug 2024
Viewed by 923
Abstract
This study evaluated the significance and predictive value of ultrasonographic and physical examination on arrival at an Austrian fattening farm. Treatment frequency and average daily weight gain (ADG) were related to physical and ultrasonographic examination results. Additionally, the effect of an intranasal vaccination [...] Read more.
This study evaluated the significance and predictive value of ultrasonographic and physical examination on arrival at an Austrian fattening farm. Treatment frequency and average daily weight gain (ADG) were related to physical and ultrasonographic examination results. Additionally, the effect of an intranasal vaccination in half of the examined calves was studied. The clinical and ultrasonographic health status 600 calves was recorded at the beginning and end of fattening. Half of the calves received an intranasal vaccination (Bovalto® Respi Intranasal). Overall, 44.5% showed an abnormal respiratory scoring (RS) and 56.0% showed signs of respiratory diseases in transthoracic ultrasonography (TUS) at arrival on the farm. For both RS and TUS, a categorization between ILL and HEALTHY was conducted. Results showed lower ADG in ILL calves (RS median: 0.93 kg/d; TUS median: 0.96 kg/d) compared to HEALTHY calves (RS median: 1.01 kg/d; TUS median: 1.01 kg/d). The median ADG was lower in not treated and ILL calves (RS median 0.90 kg/d; TUS: 0.93 kg/d) compared to treated and ILL calves (RS median 1.01 kg/d; TUS: 1.02 kg/d). Vaccination did not affect growth performance or occurrence of ILL, though treatment frequency was lower in VAC calves (17.0% in NVAC; 11.3% in VAC). The implementation of examination protocols for respiratory diseases may have a positive impact on production parameters (e.g., treatment frequency and ADG). Full article
(This article belongs to the Section Cattle)
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<p>Segmentation of calves’ lungs in five examination areas. L1 = lobus cranialis sinister, L2 = lobus caudalis sinister, R1 = lobus cranialis dexter + lobus medialis dexter, R2 = lobus accessories (accessible in slaughter examination exclusively), R3 = lobus caudalis dexter [<a href="#B18-animals-14-02311" class="html-bibr">18</a>,<a href="#B32-animals-14-02311" class="html-bibr">32</a>].</p>
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<p>Significant difference in average daily weight gain (ADG in kg/d) between clinically ILL (<span class="html-italic">n</span> = 267) and HEALTHY (<span class="html-italic">n</span> = 333) calves were detected in the first respiratory scoring (RS) at the beginning of fattening. Different letters (a,b) within the category (ILL or HEALTHY) are statistically different (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Significant difference in average daily weight gain (ADG in kg/d) between ultrasonographically ILL (<span class="html-italic">n</span> = 336) and HEALTHY (<span class="html-italic">n</span> = 264) calves detected in the first transthoracic ultrasonography scoring (TUS1) at the beginning of fattening. Different letters (a,b) within the category (ILL or HEALTHY) are statistically different (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Difference in average daily weight gain (ADG in kg/d) in treated (<span class="html-italic">n</span> = 73) and not treated (<span class="html-italic">n</span> = 194) calves detected in clinically ILL calves at first physical examination at the beginning of fattening. Different letters (a,b) within the category (treated or not treated) are statistically different (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>Difference in average daily weight gain (ADG in kg/d) between treated (<span class="html-italic">n</span> = 80) and not treated (<span class="html-italic">n</span> = 256) ultrasonographically ILL calves at first ultrasonographic examination at the beginning of fattening. Different letters (a,b) within the category (treated or not treated) are statistically different (<span class="html-italic">p</span> &lt; 0.05).</p>
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24 pages, 8184 KiB  
Article
A Comparative Analysis of Friction and Energy Losses in Hydrogen and CNG Fueled Engines: Implications on the Top Compression Ring Design Using Steel, Cast Iron, and Silicon Nitride Materials
by Vasiliki-Ioanna Nikolopoulou, Anastasios Zavos and Pantelis Nikolakopoulos
Materials 2024, 17(15), 3806; https://doi.org/10.3390/ma17153806 - 1 Aug 2024
Viewed by 1268
Abstract
Optimizing the design of the top compression ring holds immense importance in reducing friction across both traditional Internal Combustion (IC) engines and hybrid power systems. This study investigates the impact of alternative fuels, specifically hydrogen and CNG, on the behavior of top piston [...] Read more.
Optimizing the design of the top compression ring holds immense importance in reducing friction across both traditional Internal Combustion (IC) engines and hybrid power systems. This study investigates the impact of alternative fuels, specifically hydrogen and CNG, on the behavior of top piston rings within internal combustion (IC) engines. The goal of this approach is to understand the complex interplay between blow-by, fuel type, material behavior, and their effects on ring friction, energy losses, and resulting ring strength. Two types of IC engines were analyzed, taking into account flow conditions derived from in-cylinder pressures and piston geometry. Following ISO 6622-2:2013 guidelines, thick top compression rings made from varying materials (steel, cast iron, and silicon nitride) were investigated and compared. Through a quasi-static ring model within Computational Fluid Dynamics (CFD), critical tribological parameters such as the minimum film and ring friction were simulated, revealing that lighter hydrogen-powered engines with higher combustion pressures could potentially experience approximately 34.7% greater power losses compared to their heavier CNG counterparts. By delving into the interaction among the fuel delivery system, gas blow-by, and material properties, this study unveils valuable insights into the tribological and structural behavior of the top piston ring conjunction. Notably, the silicon nitride material demonstrates promising strength improvements, while the adoption of Direct Injection (DI) is associated with approximately 10.1% higher energy losses compared to PFI. Such findings carry significant implications for enhancing engine efficiency and promoting sustainable energy utilization. Full article
(This article belongs to the Special Issue Advances in Tribological and Other Functional Properties of Materials)
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<p>Simplified control volume model for the gas blow-by phenomenon through the top compression ring.</p>
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<p>Geometric specifications of the gas blow-by control volume model.</p>
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<p>Variation of total gas dynamic viscosity for the hydrogen and the CNG engine at 1500 rpm.</p>
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<p>Applied forces and flow conditions in the ring–liner contact.</p>
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<p>Boundary conditions on the 3D piston ring FEM model.</p>
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<p>Workflow of the CFD and FEM piston ring simulations.</p>
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<p>Validation results. Comparison between experimental friction from Zavos and Nikolakopoulos [<a href="#B52-materials-17-03806" class="html-bibr">52</a>] and CFD results from the current analysis.</p>
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<p>Validation results. (<b>a</b>) Equivalent Von Mises stress and (<b>b</b>) total deformation of the top piston ring from the current analysis using data from Mishra et al. [<a href="#B29-materials-17-03806" class="html-bibr">29</a>].</p>
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<p>Variation of in-cylinder pressure and top compression ring back pressure in hydrogen IC engine at 1500 rpm.</p>
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<p>Variation of in-cylinder pressure and top compression ring back pressure in CNG IC engine at 1500 rpm.</p>
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<p>Predicted ring sliding velocity for a hydrogen engine (solid line) and a CNG engine (dashed line) at 1500 rpm.</p>
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<p>Predicted minimum film for the hydrogen engine (solid black line) and the CNG engine (dashed black line) at 1500 rpm.</p>
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<p>Predicted total friction and power loss for the hydrogen engine (solid line) and the CNG engine (dashed line) at 1500 rpm.</p>
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<p>Predicted average energy losses at 1500 rpm.</p>
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<p>Young’s Modulus vs. total tensile strength of base materials in piston rings.</p>
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<p>Predicted maximum Von Mises stress under different ring materials and engine conditions at 1500 rpm.</p>
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21 pages, 2025 KiB  
Review
Long Non-Coding RNA AGAP2-AS1: A Comprehensive Overview on Its Biological Functions and Clinical Significances in Human Cancers
by Feng Ma, Bingbing Zhang, Yiqi Wang and Chenghua Lou
Molecules 2024, 29(15), 3461; https://doi.org/10.3390/molecules29153461 - 24 Jul 2024
Viewed by 1602
Abstract
Long non-coding RNAs (lncRNAs) are well known for their oncogenic or anti-oncogenic roles in cancer development. AGAP2-AS1, a new lncRNA, has been extensively demonstrated as an oncogenic lncRNA in various cancers. Abundant experimental results have proved the aberrantly high level of AGAP2-AS1 [...] Read more.
Long non-coding RNAs (lncRNAs) are well known for their oncogenic or anti-oncogenic roles in cancer development. AGAP2-AS1, a new lncRNA, has been extensively demonstrated as an oncogenic lncRNA in various cancers. Abundant experimental results have proved the aberrantly high level of AGAP2-AS1 in a great number of malignancies, such as glioma, colorectal, lung, ovarian, prostate, breast, cholangiocarcinoma, bladder, colon and pancreatic cancers. Importantly, the biological functions of AGAP2-AS1 have been extensively demonstrated. It could promote the proliferation, migration and invasion of cancer cells. Simultaneously, the clinical significances of AGAP2-AS1 were also illustrated. AGAP2-AS1 was exceptionally overexpressed in various cancer tissues. Clinical studies disclosed that the abnormal overexpression of AGAP2-AS1 was tightly connected with overall survival (OS), lymph nodes metastasis (LNM), clinical stage, tumor infiltration, high histological grade (HG), serous subtype and PFI times. However, to date, the biological actions and clinical significances of AGAP2-AS1 have not been systematically reviewed in human cancers. In the present review, the authors overviewed the biological actions, potential mechanisms and clinical features of AGAP2-AS1 according to the previous studies. In summary, AGAP2-AS1, as a vital oncogenic gene, is a promising biomarker and potential target for carcinoma prognosis and therapy. Full article
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<p>Related information of <span class="html-italic">AGAP2-AS1</span>. (<b>A</b>) The genomic localization of <span class="html-italic">AGAP2-AS1</span> (<a href="https://www.ncbi.nlm.nih.gov" target="_blank">https://www.ncbi.nlm.nih.gov</a>, accessed on 6 July 2024). (<b>B</b>) Secondary structure of <span class="html-italic">AGAP2-AS1</span>. (<b>C</b>) Three-dimensional structure of <span class="html-italic">AGAP2-AS1</span>. (<b>D</b>) Motif analysis of <span class="html-italic">AGAP2-AS1</span>. (<b>E</b>) The expression level of <span class="html-italic">AGAP2-AS1</span> in clinical carcinomatous (red color) and non-carcinomatous (blue color) tissues was analyzed using the UALCAN database (<a href="https://ualcan.path.uab.edu/" target="_blank">https://ualcan.path.uab.edu/</a>, accessed on 18 May 2024). BLCA: Bladder urothelial carcinoma; BRCA: Breast invasive carcinoma; CESC: Cervical squamous cell carcinoma; CHOL: Cholangiocarcinoma; COAD: Colon adenocarcinoma; ESCA: Esophageal carcinoma; GBM: Glioblastoma multiforme; HNSC: Head and neck squamous cell carcinoma; KICH: Kidney chromophobe; KIRC: Kidney renal clear cell carcinoma; KIRP: Kidney renal papillary cell carcinoma; LIHC: Liver hepatocellular carcinoma; LUAD: Lung adenocarcinoma; LUSC: Lung squamous cell carcinoma; LIHC: Liver hepatocellular carcinoma; LUAD: Lung adenocarcinoma; LUSC: Lung squamous cell carcinoma; PAAD: Pancreatic adenocarcinoma; PCPG: Pheochromocytoma and paraganglioma; PRAD: Prostate adenocarcinoma; READ: Rectum adenocarcinoma; SARC: Sarcoma; THYM: Thymoma; THCA: Thyroid carcinoma; UCEC: Uterine corpus endometrial carcinoma.</p>
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<p>The potential molecular mechanisms of <span class="html-italic">AGAP2-AS1</span> in human carcinomas. <span class="html-italic">AGAP2-AS1</span> promoted cancer proliferation, migration and invasion in various cancers, including glioma, PTC, LC, melanoma, ccRCC, GC, PC, EC, BC, CRC and CLC.</p>
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<p>The <span class="html-italic">AGAP2-AS1</span> expression profile, and its correlation with cancer stage, tumor histology and survival analyzed using the UALCAN database (<a href="https://ualcan.path.uab.edu/" target="_blank">https://ualcan.path.uab.edu/</a>, accessed on 20 May 2024).</p>
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<p>The <span class="html-italic">AGAP2-AS1</span> expression in normal, tumor, and metastatic tumor tissues using the TNM plot (<a href="https://tnmplot.com/analysis/" target="_blank">https://tnmplot.com/analysis/</a>, accessed on 22 May 2024).</p>
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21 pages, 3940 KiB  
Article
Random Forest and Feature Importance Measures for Discriminating the Most Influential Environmental Factors in Predicting Cardiovascular and Respiratory Diseases
by Francesco Cappelli, Gianfranco Castronuovo, Salvatore Grimaldi and Vito Telesca
Int. J. Environ. Res. Public Health 2024, 21(7), 867; https://doi.org/10.3390/ijerph21070867 - 2 Jul 2024
Cited by 2 | Viewed by 1541
Abstract
Background: Several studies suggest that environmental and climatic factors are linked to the risk of mortality due to cardiovascular and respiratory diseases; however, it is still unclear which are the most influential ones. This study sheds light on the potentiality of a data-driven [...] Read more.
Background: Several studies suggest that environmental and climatic factors are linked to the risk of mortality due to cardiovascular and respiratory diseases; however, it is still unclear which are the most influential ones. This study sheds light on the potentiality of a data-driven statistical approach by providing a case study analysis. Methods: Daily admissions to the emergency room for cardiovascular and respiratory diseases are jointly analyzed with daily environmental and climatic parameter values (temperature, atmospheric pressure, relative humidity, carbon monoxide, ozone, particulate matter, and nitrogen dioxide). The Random Forest (RF) model and feature importance measure (FMI) techniques (permutation feature importance (PFI), Shapley Additive exPlanations (SHAP) feature importance, and the derivative-based importance measure (κALE)) are applied for discriminating the role of each environmental and climatic parameter. Data are pre-processed to remove trend and seasonal behavior using the Seasonal Trend Decomposition (STL) method and preliminary analyzed to avoid redundancy of information. Results: The RF performance is encouraging, being able to predict cardiovascular and respiratory disease admissions with a mean absolute relative error of 0.04 and 0.05 cases per day, respectively. Feature importance measures discriminate parameter behaviors providing importance rankings. Indeed, only three parameters (temperature, atmospheric pressure, and carbon monoxide) were responsible for most of the total prediction accuracy. Conclusions: Data-driven and statistical tools, like the feature importance measure, are promising for discriminating the role of environmental and climatic factors in predicting the risk related to cardiovascular and respiratory diseases. Our results reveal the potential of employing these tools in public health policy applications for the development of early warning systems that address health risks associated with climate change, and improving disease prevention strategies. Full article
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<p>Flowchart of research methodology. The process begins with collecting daily data on admissions for cardiovascular and respiratory diseases, along with daily environmental and climatic parameters. The raw data undergo a pre-processing step and the STL (Seasonal Trend Decomposition using Loess) method is employed to remove residual and seasonal behaviors. Subsequently, a Random Forest model is applied to predict disease admissions based on the pre-processed environmental data. Feature importance measures, including permutation feature importance (PFI), SHapley Additive exPlanations (SHAP), and the derivative-based importance measure (<math display="inline"><semantics> <mrow> <msup> <mi>κ</mi> <mrow> <mi>A</mi> <mi>L</mi> <mi>E</mi> </mrow> </msup> </mrow> </semantics></math>), are then computed to analyze and identify the most influential environmental parameters.</p>
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<p>Heatmap of environmental factors.</p>
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<p>Error distribution (error bands) between actual and simulated data. The first chart (<b>a</b>) presents a scatter plot comparing simulated and actual values in the case of CVD, while the second chart (<b>b</b>) does the same for RD. The red line is the bisector of the chart, representing a perfect match between actual and simulated data. The green and purple bands indicate an error of + and −10%, respectively, whereas the blue and orange bands represent an error of + and −20%.</p>
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<p>Error distribution (error bands) between actual and simulated data. The first chart (<b>a</b>) presents a scatter plot comparing simulated and actual values in the case of CVD, while the second chart (<b>b</b>) does the same for RD. The red line is the bisector of the chart, representing a perfect match between actual and simulated data. The green and purple bands indicate an error of + and −10%, respectively, whereas the blue and orange bands represent an error of + and −20%.</p>
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<p>(<b>a</b>) Estimates of the three FIMs (PFI, Shap, and <math display="inline"><semantics> <mrow> <msup> <mi>κ</mi> <mrow> <mi>A</mi> <mi>L</mi> <mi>E</mi> </mrow> </msup> </mrow> </semantics></math>) calculated using RF forecasts considering CVD as the target variable (Case 1); (<b>b</b>) estimates of the three FIMs (PFI, Shap, and <math display="inline"><semantics> <mrow> <msup> <mi>κ</mi> <mrow> <mi>A</mi> <mi>L</mi> <mi>E</mi> </mrow> </msup> </mrow> </semantics></math>) calculated using RF forecasts considering RD as the target variable (Case 2).</p>
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<p>(<b>a</b>) Estimates of the three FIMs (PFI, Shap, and <math display="inline"><semantics> <mrow> <msup> <mi>κ</mi> <mrow> <mi>A</mi> <mi>L</mi> <mi>E</mi> </mrow> </msup> </mrow> </semantics></math>) calculated using RF forecasts considering CVD as the target variable (Case 1); (<b>b</b>) estimates of the three FIMs (PFI, Shap, and <math display="inline"><semantics> <mrow> <msup> <mi>κ</mi> <mrow> <mi>A</mi> <mi>L</mi> <mi>E</mi> </mrow> </msup> </mrow> </semantics></math>) calculated using RF forecasts considering RD as the target variable (Case 2).</p>
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<p>CVD—Case 1: Estimates of performance indices resulting from the incremental configurations (‘conf’) of RF constructed using PFI/Shap importance ranking (<b>a</b>) and the <math display="inline"><semantics> <mrow> <msup> <mi>κ</mi> <mrow> <mi>A</mi> <mi>L</mi> <mi>E</mi> </mrow> </msup> </mrow> </semantics></math> importance ranking (<b>b</b>). Horizontal lines indicate the best performance achieved by the full RF model after tuning.</p>
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<p>RD—Case 2: Estimates of performance indices resulting from the incremental configurations (‘conf’) of RF constructed using the PFI/Shap importance ranking (<b>a</b>) and the <math display="inline"><semantics> <mrow> <msup> <mi>κ</mi> <mrow> <mi>A</mi> <mi>L</mi> <mi>E</mi> </mrow> </msup> </mrow> </semantics></math> importance ranking (<b>b</b>). Horizontal lines indicate the best performance achieved by the full RF model after tuning.</p>
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<p>Comparison between the performances resulting from the incremental configurations (‘conf’) of RF constructed using the PFI/Shap importance ranking and those resulting using the importance ranking for CVD—Case 1 (<b>a</b>) and CVD—Case 2 (<b>b</b>). Horizontal lines indicate the best performance achieved by the full RF model after tuning.</p>
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